any person
> unless specifically indicated by agreement in writing other than email.
>
>
> Monitoring: AstraZeneca UK Limited may monitor email traffic data and content
> for the purposes of the prevention and detection of crime, ensuring the
> security of our computer systems
protein.
>
> What is the best method and software to do homology modeling while I try to
> get the crystal? Is the ligand binding site prediction reliable? There is no
> available experimental data on this protein except to sugest it is some type
> of ion transport.
>
> Thank
modern man in a post-modern world
>MacCHESS, Cornell University
> schul...@cornell.edu
--
Eric Bennett, er...@pobox.com
Always try to associate yourself with and learn as much as you can from those
who know more than
Scott,
I'm not sure I understand your last paragraph. Once researchers have had their
data pass peer review (which I interpret as meaning a journal has accepted it),
how often do you think it happens that it does not immediately get published?
Just depositing data in the PDB, or posting it on
On Sep 12, 2012, at 2:28 PM, Ethan Merritt wrote:
>> Why are you dis-ing python? Seems everybody loves it...
>
> I'm sure you can google for many "reasons I hate Python" lists.
>
> Mine would start
> 1) sensitive to white space == fail
> 2) dynamic typing makes it nearly impossible to verify pr
I doubt many people completely fail to archive data but maintaining data
archives can be a pain so I'm not sure what the useful age of the average
archive is. Do people who archived to tape keep their tapes in a format that
can be read by modern tape drives? Do people who archived data to a ha
Then everyone's data can be lost at once in the next cloud failure. Progress!
"The hardware failed in such a way that we could not forensically restore the
data. What we were able to recover has been made available via a snapshot,
although the data is in such a state that it may have little
Jacob,
I wish it were that cheery. Do not forget the darker side of history.
The prefix "L-" stands for levorotary. The "levo" comes from the Latin wording
for "left side". Left handedness is also known as sinistrality, from the Latin
"sinistra" which also meant the left side, but over time
For anything other than the most intensive I/O operations, recent processors
will give you very respectable performance.
I don't encrypt whole drives but I do have some AES-encrypted disk images in
Snow Leopard, and I get about 38 MB/sec throughput copying (using cp) and 60
MB/sec reading (whil
John,
Since so many people have said it's flawless, I'd like to point out this is not
always the case. The particular version of the particular package that we have
installs some system libraries that caused a program I use on a moderately
frequent basis to crash every time I tried to open a f
It would be even scarier if they used an NMR structure.
-Eric
On Jul 16, 2011, at 1:20 PM, Robbie Joosten wrote:
> Hi Artem,
>
> Thank for that nice example of a protein structure used to pimp a movie.
> Ribbon representations are always the scariest.
>
> Cheers,
> Robbie
Nvidia lists that monitor on their list of supported hardware:
http://www.nvidia.com/object/3d-vision-requirements.html
They even sell some Acer monitors in their online store although they are
labeled in conflicting ways.
I tried upgrading the driver yesterday to the 270.41.06 version but it di
We recently had issues setting up a 3D projector and have tried lots of
combinations of monitors, drivers, cards, glasses, etc. The answer seems to be
that interchangeability is very complicated and you won't know unless you try
it.
For example, with the last version of the Nvidia driver I te
Most non-structural users are familiar with the sequence of the proteins they
are studying, and most software does at least display residue identity if you
select an atom in a residue, so usually it is not necessary to do any cross
checking besides selecting an atom in the residue and seeing wha
Personally I think it is a _good_ thing that those missing atoms are a pain,
because it helps ensure you are aware of the problem. As somebody who is in
the business of supplying non-structural people with models, and seeing how
those models are sometimes (mis)interpreted, I think it's better t
ellow Strcutural Biology Program Memorial
Sloan-Kettering Cancer Center New York-10021 NY 001 212 639 7986
(Lab) 001 917 674 6266 (Mobile)
--
--
Eric Bennett, er...@pobox.com
Drawing on my fine command of the language, I said nothing.
-Robert Benchley
Subhendu wrote:
Hi everyone,
I am currently in the process of solving some antigen-antibody
complex structures. I was wondering if people here have used
Modeller and Rosetta for homology modeling and have any
recommendations.I would like to build the model of the
antigen/antibody to the know
Robbie Joosten wrote:
I think the deposition of maps is a waste of space. Maps may describe what
the depositors want you to think they have looked at.
But that does not mean they looked at the right thing. Who knows what they
did to the maps in terms of (unwarrented) density modefication to make
Dear Fred,
People have already done this for all PDB entries:
- http://eds.bmc.uu.se/eds/ : maps and many crystallographic stats
- http://www.cmbi.ru.nl/pdb_redo : maps and re-refinement. And yes, the
stats and maps do improve most of the time, unfortunately also for
structures that are not
fully specify all software settings required to get the same map
(perhaps they used NCS but you have to re-determine the NCS
yourself)... etc.
--
Eric Bennett, er...@pobox.com
Ian Tickle wrote:
For that to
be true it would have to be possible to arrive at a different unbiased
Rfree from another starting point. But provided your starting point
wasn't a local maximum LL and you haven't gotten into a local maximum
along the way, convergence will be to a unique global ma
Kay Diederichs wrote:
In this case the structure factors were deposited, but these do not
have a column for the anomalous signal. Re-refinement with these
structure factors was inconclusive.
If I could have downloaded the images, I could have investigated
this easily, because there's a large
Bernhard Rupp wrote:
I only scratched the surface and I think it would be hard work to fake
the images in a way that later expert forensics would
not readily provide evidence. Also, there are 'watermarks' available from
cryptographic methods that are even 'post-processing' resistant.
A practi
pensive. If you are on a budget
maybe you could snag an older used card online somewhere.
--
--
Eric Bennett
Hofstadter's Law: It always takes longer than you expect,
even when you take into account Hofstadter's Law.
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